Bottom Bracket

Replacing the BB this evening, I'm not convinced all is well in the frame here, so took a pic. One of these holes at least looks like it shouldn't be there

In this shot, 9 o'clock is the bottom of the frame The hole at 3 o'clock (saddle is above here) looks very wrong. The one at 12 o'clock in this shot seems to line up with the bottom tube.

There's another view here.